Biology – Quantitative Biology – Genomics
Scientific paper
2012-01-11
Biology
Quantitative Biology
Genomics
17 pages, 5 inline figures, 3 tables, supplementary figures/tables split into 4 PDF files; manuscript submitted to PLoS ONE
Scientific paper
Background: The delineation of genomic copy number abnormalities (CNAs) from cancer samples has been instrumental for identification of tumor suppressor genes and oncogenes and proven useful for clinical marker detection. An increasing number of projects have mapped CNAs using high-resolution microarray based techniques. So far, no single resource does provide a global collection of readily accessible oncoge- nomic array data. Methodology/Principal Findings: We here present arrayMap, a curated reference database and bioinformatics resource targeting copy number profiling data in human cancer. The arrayMap database provides a platform for meta-analysis and systems level data integration of high-resolution oncogenomic CNA data. To date, the resource incorporates more than 40,000 arrays in 224 cancer types extracted from several resources, including the NCBI's Gene Expression Omnibus (GEO), EBIs ArrayExpress (AE), The Cancer Genome Atlas (TCGA), publication supplements and direct submissions. For the majority of the included datasets, probe level and integrated visualization facilitate gene level and genome wide data re- view. Results from multi-case selections can be connected to downstream data analysis and visualization tools. Conclusions/Significance: To our knowledge, currently no data source provides an extensive collection of high resolution oncogenomic CNA data which readily could be used for genomic feature mining, across a representative range of cancer entities. arrayMap represents our effort for providing a long term platform for oncogenomic CNA data independent of specific platform considerations or specific project dependence. The online database can be accessed at http://www.arraymap.org.
Baudis Michael
Cai Haoyang
Kumar Nitin
No associations
LandOfFree
arrayMap: A Reference Resource for Genomic Copy Number Imbalances in Human Malignancies does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.
If you have personal experience with arrayMap: A Reference Resource for Genomic Copy Number Imbalances in Human Malignancies, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and arrayMap: A Reference Resource for Genomic Copy Number Imbalances in Human Malignancies will most certainly appreciate the feedback.
Profile ID: LFWR-SCP-O-153358